org.biojava.nbio.structure.math

Class SparseVector

java.lang.Object

org.biojava.nbio.structure.math.SparseVector

All Implemented Interfaces:

Serializable

public class SparseVector
extends Object
implements Serializable

A sparse vector, implemented using a symbol table. Derived from http://introcs.cs.princeton.edu/java/44st/SparseVector.java.html For additional documentation, see Section 4.4 of Introduction to Programming in Java: An Interdisciplinary Approach by Robert Sedgewick and Kevin Wayne.

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor and Description
SparseVector(int N) Constructor.

Method Summary

Methods

Modifier and Type	Method and Description
double	dot(SparseVector b) Calculates the dot product of this vector a with b
double	get(int i) get a value
int	nnz()
double	norm() Calculates the 2-norm
SparseVector	plus(SparseVector b) Calcualtes return a + b
void	put(int i, double value) Setter method (should it be renamed to set?)
SparseVector	scale(double alpha) Calculates alpha * a
int	size()
String	toString()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

SparseVector

public SparseVector(int N)

Constructor. initialize the all 0s vector of length N

Parameters:

N -

Method Detail

put

public void put(int i,
       double value)

Setter method (should it be renamed to set?)

Parameters:

i - set symbolTable[i]

value -

get

public double get(int i)

get a value

Parameters:

i -

Returns:

return symbolTable[i]

nnz

public int nnz()

size

public int size()

dot

public double dot(SparseVector b)

Calculates the dot product of this vector a with b

Parameters:

b -

Returns:

norm

public double norm()

Calculates the 2-norm

Returns:

scale

public SparseVector scale(double alpha)

Calculates alpha * a

Parameters:

alpha -

Returns:

plus

public SparseVector plus(SparseVector b)

Calcualtes return a + b

Parameters:

b -

Returns:

toString

public String toString()

Overrides:

toString in class Object